› 3o07

X-ray diffraction
1.8Å resolution

Crystal structure of yeast pyridoxal 5-phosphate synthase Snz1 complexed with substrate G3P

Released:
DOI: 10.2210/pdb3o07/pdb
PDB entry 3o07 coloured by chain, front view.
PDB entry 3o07 coloured by chain, side view.
PDB entry 3o07 coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structural insights into the catalytic mechanism of the yeast pyridoxal 5-phosphate synthase Snz1.
Zhang X, Teng YB, Liu JP, He YX, Zhou K, Chen Y, Zhou CZ
Biochem J 432 445-50 (2010)
PMID: 20919991

Function and Biology Details

Reaction catalysed: 
(1a) L-glutamine + H(2)O = L-glutamate + NH(3)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-169850 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pyridoxal 5'-phosphate synthase subunit SNZ1 Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 291 amino acids
Theoretical weight: 31.37 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: Q03148 (Residues: 15-297; Coverage: 95%)
Gene names: SNZ1, YM6543.03, YMR096W
Sequence domains: SOR/SNZ family
Structure domains: Aldolase class I

Ligands and Environments

1 bound ligand:
Ligand G3H 3 x G3H
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Unit cell:
a: 60.474Å b: 111.972Å c: 158.744Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.205 0.203 0.236
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Vitamin requirements and biosynthesis in Saccharomyces cerevisiae.
Perli et al. (2020)
2 more

3 mentions without citation

Structural definition of the lysine swing in Arabidopsis thaliana PDX1: Intermediate channeling facilitating vitamin B6 biosynthesis.
Robinson et al. (2016)
2 more